We are repeating our EMBO Practical course for imaging-based spatial omics this June in Heidelberg. We will cover sample preparation, multiplexed IF (IBEX and Immuno-SABER), antibody-DNA conjugation, in situ sequencing, data analysis and visualization. Lots of fun and in-depth discussions!
03.03.2025 16:32 — 👍 10 🔁 3 💬 0 📌 0
Sometimes the most challenging cases seem to pop up on Friday when you’re on your own. We tried to collect some helpful points when dealing with these cases. @nephroneu.bsky.social @kathrineller.bsky.social @odlerb.bsky.social @ckj-era.bsky.social
13.02.2025 11:20 — 👍 8 🔁 4 💬 0 📌 0
2D, or not 2D? Investigating Vertical Signal Integrity of Tissue Slices
Imaging-based spatially resolved transcriptomics can localise transcripts within cells in 3D. Cell segmentation precedes assignment of transcripts to cells and annotation of cell function. However, ce...
Have you been bothered that practically every #SpatialTranscriptomic analysis tool assumes data to be 2D? Well, you were right - overlapping cells are a really big problem. Check out our report on bioRxiv: 2D, or not 2D? Investigating Vertical Signal Integrity of Tissue Slices. t.ly/CQX8K
08.02.2025 09:43 — 👍 7 🔁 3 💬 1 📌 0
